Dear all,
I was trying to fix the missing residues for my PDB structure, but I couldn't use all atom option to let Chimera go through the entire sequence. It turns out with an error message. I googled for answers but in vain. Those terminal structures are necessary for the interaction. Hence, I wonder whether there is a good way to fill in the missing residues in the termini, either in Chimera or other softwares. (Rule out Modeller first, alignment.ali did not work)
Any comments are appreciated.
Hi Tini,
A) Try to download the coordinates of the protein you want from the AlphaFold Protein Structure Database instead of fixing the missing residues of your PDB structure:
https://alphafold.ebi.ac.uk/
B) Try Homology modeling servers like SWISS-MODEL:
https://swissmodel.expasy.org/
You should upload your PDB protein with missing residues as a structure template.
yes as mentioned in the above answer try to download the Alphafold structure database and check for your protein. if your protein of interest is available then fine otherwise you can go to the Colab link of Alphafold and model it. may be you can get the desired result.
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